Tim Lohoff

The paper describes a resource of clonal human pluripotent stem cell lines derived from embryos, showing intra- and inter-embryo variation and potential for modeling chromosomal mosaicism.

This study creates a spatiotemporal atlas of mouse gastrulation and early organogenesis using spatial transcriptomics and scRNA-seq, revealing gene expression dynamics and mesodermal fate decisions.

The paper identifies epigenetically primed enhancers in early embryonic development and shows their role in regulating developmental gene networks across species.

The paper identifies Eomes's role in directing the formation of distinct extra-embryonic hematovascular tissues in mice, revealing functional and mechanistic diversity in their development.

The paper investigates how DNA methylation dynamics during pluripotency exit influence enhancer priming and hematopoietic gene activation in mouse cells.

A mouse embryo multiome atlas (E7.5 to E8.75) and an unsupervised transcription factor binding predictor; a Brachyury knockout supports its network predictions in neuromesodermal progenitors.

SageNet predicts spatial positions and cell-cell proximities of dissociated single-cell data using a graph neural network trained on spatial references.

This paper uses spatial transcriptomics to study mouse organogenesis, revealing spatial gene expression patterns and cell fate decisions not captured by single-cell RNA sequencing.

This paper develops a framework to infer spatio-temporal processes in the nucleus from single-cell methylome data, showing feedback between DNA methylation and chromatin condensates during pluripotency exit.